3933 days ago
Tools to detect synteny blocks regions among multiple genomes
The synteny block (which etymologically means “on....php) Genome Synteny Viewer allows users to upload files which contain synteny regions...en them. GSV also allows users to upload annotation files to visualize annotated region...2603 days ago
Latest paper on comparison of mapping tools
A. Hatem, D. Bozdag, A. E. Toland, U. V. Catalyurek "Benchmarking short sequence ma...T http://mrsfast.sourceforge.net/Home http://sourceforge.net/projects/mrsfast/files/mrsfast-ultra-3.1.0/ BFAST...3890 days ago
Public Databases for Bioinformatics !
...12TB RAID5 local storage Filesystem: /users/$USER defa...atterns: # gzip a bunch of files parallel gzip -- *.FILESTO...https://www.encodeproject.org/files/ENCFF446WOD/@@download/ENCFF446WOD.bed.gz, https://www.encodeproj...sts/hg38-human/hg38.blacklist.bed.gz. The human genome version hg...1132 days ago
Prepare for Coding Interview !
This is a comprehensive guide to prepare for your next coding interview. It's great...ive algorithms 5. Scheduling algorithms (Greedy) 6. Caching 1 7. Sorting 8. Files 9. Computability 10. Bitwis...838 days ago
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie...structure and IO Phylogenetic trees.IO from newick files, with support for multiple en...simony (NNI)Distance matrices estimation and I/O to files in Phylip format.Distance met...3941 days ago
BioRuby :Ruby packages for biologist
BioRuby is a package of Open Source Ruby code, with classes for DNA and protein seq...as started in late 2000, and is still in progress. Currently, there are over 80 files and 15,000 lines (except comm...3940 days ago
3935 days ago
Bioinformatics Courses Around the World
Bioinformatics Courses around the world Here is the list Bioinformatics courses offered around the world. Reasons for constructing this page are: To show the exten...3936 days ago
Programming language to build synthetic DNA
A team led by Georg Seelig (http://homes.cs.washington.edu/~seelig/index.html) at University of Washing...hat can guide the behavior of chemical-reaction mixtures in the same way that embedde...3863 days ago
Biggest Human Brain Project (HBP) launched!!!
"In neuroscience, the project will use neuroinformatics and brain simulation to collect and integrate experimental data, identifying and filling gaps in our knowledg...3855 days ago
Postdoctoral Associate - Bioinformatics at Duke University Medical Center
The Department of Biostatistics and Bioinformatics at Duke University Medical Cente...stat.duke.edu. For more info: http://biostat.duke.edu/sites/biostat.duke.edu/files/Halabi%20-%20Postdoc%20Job%20...3914 days ago
CSIR-INSTITUTE OF GENOMICS & INTEGRATIVE BIOLOGY
CSIR-INSTITUTE OF GENOMICS & INTEGRATIVE BIOLOGY, Mall Road, Delhi 110007 PO...ntry will be closed by 10:00 AM. More @ http://www.igib.res.in/sites/default/files/23092013.htm3895 days ago
Python script to download covid genome !
#!/usr/bin/env python3 # these are the publicly available "complete" sequences...seqs = yaml.load(requests.get("https://www.ncbi.nlm.nih.gov/core/assets/genbank/files/ncov-sequences.yaml").text)...1129 days ago
Install BLAST in Ubuntu/Linux and Window !
#On ubuntu sudo apt-get install ncbi-blast+ #Ubuntu Conda installation conda...#Run this installer using the defaults, it should put BLAST under C:\Program Files\NCBI\blast-2.7.1+...1140 days ago
Tryst with a Bioinformatician # Dr Altan Kara
Dr Altan Kara is a Bioinformatics specialist at...in the gene, transcript, protein, and metabolite profiles between normal tissue, normal...ays easily control input output directories, modify files or directories, annotate and...2355 days ago
Using Interval Trees to Query Genome Annotations by Position
To work on query related to overlapping genomic features: use IntervalTree python pkg http://informatics.malariagen.net/2011/07/07/using-interval-trees-to-query-genome-annotations-by-position/ http://hackmap.blogspot.de/2008/11/python-interval-tree.html http://en.wikipedia.org/wiki/Interval_tr...Tags: genome overlapping features, BED files, IntervalTrees
3542 days ago
Comment on "Genome in a Bottle (GIAB) Consortium"
...echnologies to generate variant calls and regions for use in benchmarking and validating variant calling pipelines. Currently, benchmark VCF and BED files for small variants are availa...1553 days ago
2130 days ago